Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 130 of 187
Found at i:38551900 original size:44 final size:44
Alignment explanation
Indices: 38551837--38552402 Score: 903
Period size: 43 Copynumber: 13.0 Consensus size: 44
38551827 TTTGGATAAG
38551837 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
38551881 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
38551925 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
38551969 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
38552013 GGCGTTTTTTTTGCTAAGCGCCTCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
38552057 GGCG-TTTTGTGGCTAAGCGCTGCTAAAGACCATGATCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
38552100 GGCG-TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
38552143 GGCG-TTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* ** *
38552186 GGC-ATTTTTCGGCTAAGCACCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
38552229 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
38552273 GGCGTTTTTTGT-CTAAGCGTCGCTAAAGACAATGGCCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
38552316 GGCGTTTTTTGT-CTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
38552359 GGCGTTTTTTGT-CTAAGCGCCGCTAAAGACAATGGTCTATAGT
1 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
38552402 G
1 G
38552403 TATAGTAATT
Statistics
Matches: 493, Mismatches: 27, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
43 267 0.54
44 226 0.46
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (44 bp):
GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:38553987 original size:26 final size:27
Alignment explanation
Indices: 38553958--38554010 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
38553948 TTTGTTTTTC
38553958 TATTTCTAA-AAATAAAT-TTCTCAACA
1 TATTTCTAATAAAT-AATCTTCTCAACA
38553984 TATTTCTAATTAAATAATCTTCTCAAC
1 TATTTCTAA-TAAATAATCTTCTCAAC
38554011 CAAATTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.38
27 3 0.12
28 12 0.50
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (27 bp):
TATTTCTAATAAATAATCTTCTCAACA
Found at i:38554293 original size:41 final size:43
Alignment explanation
Indices: 38554248--38554328 Score: 121
Period size: 41 Copynumber: 1.9 Consensus size: 43
38554238 TCATTTTGGA
* *
38554248 GAAAACCATAATTATTTCCAAGTG-TTTC-CATTTCTCCAATT
1 GAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCAATT
*
38554289 GAAAACCATAATCATTTTCAAATGATTTCTCATTTCTCCA
1 GAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCA
38554329 TTTTTACCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 21 0.60
42 4 0.11
43 10 0.29
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.38
Consensus pattern (43 bp):
GAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCAATT
Found at i:38571904 original size:9 final size:9
Alignment explanation
Indices: 38571890--38571936 Score: 94
Period size: 9 Copynumber: 5.2 Consensus size: 9
38571880 TTGGTTTTCG
38571890 AATTCAAAT
1 AATTCAAAT
38571899 AATTCAAAT
1 AATTCAAAT
38571908 AATTCAAAT
1 AATTCAAAT
38571917 AATTCAAAT
1 AATTCAAAT
38571926 AATTCAAAT
1 AATTCAAAT
38571935 AA
1 AA
38571937 ACCAAATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
AATTCAAAT
Found at i:38571942 original size:27 final size:27
Alignment explanation
Indices: 38571890--38571944 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
38571880 TTGGTTTTCG
**
38571890 AATTCAAATAATTCAAATAATTCAAAT
1 AATTCAAATAATTCAAATAAACCAAAT
38571917 AATTCAAATAATTCAAATAAACCAAAT
1 AATTCAAATAATTCAAATAAACCAAAT
38571944 A
1 A
38571945 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (27 bp):
AATTCAAATAATTCAAATAAACCAAAT
Found at i:38573914 original size:20 final size:20
Alignment explanation
Indices: 38573878--38573915 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38573868 TCATAAAATT
**
38573878 TTATAAAATTATTAAAATAA
1 TTATAAAATTAAGAAAATAA
38573898 TTATAAAATTAAGAAAAT
1 TTATAAAATTAAGAAAAT
38573916 TACATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TTATAAAATTAAGAAAATAA
Found at i:38575860 original size:67 final size:68
Alignment explanation
Indices: 38575752--38575886 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 68
38575742 CCTATTCGCG
*
38575752 TCTTCCGACCTCTCCAAGCCCAAATCTGGGTTCGAATCCCTC-AAAAAAAAACTACCCAAATGTC
1 TCTTCCGACCTCTCCAAGCCCAAATCTAGGTTCGAATCCCTCAAAAAAAAAACTACCCAAATGTC
38575816 TCC
66 TCC
38575819 TCTTCCGACCTCTCCAAGCCCAAATCTAGGTTCGAATCCCTCAAAAAAAAAACTACCCAAATGTC
1 TCTTCCGACCTCTCCAAGCCCAAATCTAGGTTCGAATCCCTCAAAAAAAAAACTACCCAAATGTC
38575884 TCC
66 TCC
38575887 AAATTTTCGA
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 41 0.62
68 25 0.38
ACGTcount: A:0.33, C:0.36, G:0.10, T:0.22
Consensus pattern (68 bp):
TCTTCCGACCTCTCCAAGCCCAAATCTAGGTTCGAATCCCTCAAAAAAAAAACTACCCAAATGTC
TCC
Found at i:38576372 original size:14 final size:14
Alignment explanation
Indices: 38576353--38576380 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38576343 GGTTTCTGAT
38576353 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
38576367 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
38576381 CCGTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTGTTTTGGGCCA
Found at i:38577318 original size:65 final size:67
Alignment explanation
Indices: 38577214--38577341 Score: 217
Period size: 65 Copynumber: 1.9 Consensus size: 67
38577204 TTTAATAAAA
38577214 TTATATTTTTTATATATAAAATATTTACGAATAACATAATTTAGTGCATATATAAAAATTTAATT
1 TTATATTTTTTATATATAAAATATTTACGAATAACATAATTTAGTGCATATATAAAAATTTAATT
38577279 TT
66 TT
*
38577281 TTATATTTTTTAT-T-TAAAATATTTAC-ACATAATATAATTTAGTGCATATATAAAAATTTAA
1 TTATATTTTTTATATATAAAATATTTACGA-ATAACATAATTTAGTGCATATATAAAAATTTAA
38577342 ACATTATCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
64 1 0.02
65 44 0.75
66 1 0.02
67 13 0.22
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (67 bp):
TTATATTTTTTATATATAAAATATTTACGAATAACATAATTTAGTGCATATATAAAAATTTAATT
TT
Found at i:38577618 original size:20 final size:20
Alignment explanation
Indices: 38577595--38577655 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
38577585 CATCTCTGCG
*
38577595 TTTCCCTTTTTTCCTTCTTA
1 TTTCCCTTTTTTCCTTATTA
*
38577615 TTTCCC----TT-CATATTA
1 TTTCCCTTTTTTCCTTATTA
*
38577630 TTTCCCTTTTTTCCTTTTTA
1 TTTCCCTTTTTTCCTTATTA
38577650 TTTCCC
1 TTTCCC
38577656 CATCTACAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
19 2 0.06
20 17 0.53
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTCCCTTTTTTCCTTATTA
Found at i:38578823 original size:15 final size:15
Alignment explanation
Indices: 38578803--38578834 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
38578793 TATTAGACTG
38578803 AAATGCTTTACTATT
1 AAATGCTTTACTATT
38578818 AAATGCTTTACTATT
1 AAATGCTTTACTATT
38578833 AA
1 AA
38578835 GTTGTGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
AAATGCTTTACTATT
Found at i:38584580 original size:63 final size:63
Alignment explanation
Indices: 38584502--38584627 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
38584492 TCTGCCAGCA
* * *
38584502 GAGACATTCTTGCACTCGCTTCCTTTGAGGTTAACCTTTCTAGCATAGTGCTAGGGAGCACTG
1 GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
38584565 GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
1 GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
38584628 TTACCGTCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (63 bp):
GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
Found at i:38585432 original size:16 final size:16
Alignment explanation
Indices: 38585411--38585450 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
38585401 TGAATTACTT
*
38585411 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
38585427 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
38585443 ATTACAGC
1 ATTACAGC
38585451 GAACCAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:38586731 original size:23 final size:23
Alignment explanation
Indices: 38586682--38586732 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
38586672 AACCATGTTT
* * * *
38586682 TAGAATACTGCAAATTGTATTTG
1 TAGAATACAGCAAACTGTATCTA
*
38586705 TAGAATGCAGCAAACTGTATCTA
1 TAGAATACAGCAAACTGTATCTA
38586728 TAGAA
1 TAGAA
38586733 ATGTCGAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (23 bp):
TAGAATACAGCAAACTGTATCTA
Found at i:38586767 original size:46 final size:46
Alignment explanation
Indices: 38586691--38586817 Score: 118
Period size: 46 Copynumber: 2.7 Consensus size: 46
38586681 TTAGAATACT
* * **
38586691 GCAAATTGTATTTGTAGAATGCA--GCAAACTGTATCTATAGAAATGTC
1 GCAAATTGTA-TTGTAGAAT-TATTGC-AACTGTATCTACAGAAACATC
* *
38586738 G-AGAATTGTATTGTAGAATATATTG-AACTGTATTTACAGAAACATT
1 GCA-AATTGTATTGTAGAAT-TATTGCAACTGTATCTACAGAAACATC
38586784 GCAAATTGTATTGTAGAATTATTGCAATCTGTAT
1 GCAAATTGTATTGTAGAATTATTGCAA-CTGTAT
38586818 TGTCTGTATT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
45 5 0.07
46 46 0.69
47 15 0.22
48 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (46 bp):
GCAAATTGTATTGTAGAATTATTGCAACTGTATCTACAGAAACATC
Found at i:38586807 original size:23 final size:22
Alignment explanation
Indices: 38586741--38586820 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
38586731 AAATGTCGAG
38586741 AATTGTATTGTAGAATATATTG-
1 AATTGTATTGTAGAAT-TATTGC
* **
38586763 AACTGTATT-TACAGAAACATTGC
1 AATTGTATTGT--AGAATTATTGC
38586786 AAATTGTATTGTAGAATTATTGC
1 -AATTGTATTGTAGAATTATTGC
38586809 AATCTGTATTGT
1 AAT-TGTATTGT
38586821 CTGTATTGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 21 0.46
24 8 0.17
25 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.41
Consensus pattern (22 bp):
AATTGTATTGTAGAATTATTGC
Found at i:38586848 original size:32 final size:32
Alignment explanation
Indices: 38586790--38586850 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
38586780 CATTGCAAAT
***
38586790 TGTATTGTAGAATTATTGCAATCTGTATTGTC
1 TGTATTGTAGAATTACCACAATCTGTATTGTC
38586822 TGTATTGTAGAATTACCACGAA-CTGTATT
1 TGTATTGTAGAATTACCAC-AATCTGTATT
38586851 TACAGAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (32 bp):
TGTATTGTAGAATTACCACAATCTGTATTGTC
Found at i:38586922 original size:47 final size:47
Alignment explanation
Indices: 38586822--38586938 Score: 121
Period size: 47 Copynumber: 2.5 Consensus size: 47
38586812 CTGTATTGTC
* * * * * * *
38586822 TGTATTGTAGAATTACCACGAACTGTATTTACAGAAATGCTGGGAAC
1 TGTATTATAGAATTACAACAAACTATATGTACAGAAATGCTGCGAAA
* * *
38586869 TATATTATAAAATTACTACAAACTATATGTACAGAAATG-TCGCGAAA
1 TGTATTATAGAATTACAACAAACTATATGTACAGAAATGCT-GCGAAA
38586916 TGTATTATAGAA-TACAACAAACT
1 TGTATTATAGAATTACAACAAACT
38586939 GTATTGTAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
46 11 0.19
47 46 0.81
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (47 bp):
TGTATTATAGAATTACAACAAACTATATGTACAGAAATGCTGCGAAA
Found at i:38587022 original size:54 final size:54
Alignment explanation
Indices: 38586977--38587517 Score: 476
Period size: 54 Copynumber: 10.1 Consensus size: 54
38586967 CTTGTATGTT
* * * * ** *
38586977 GAAGATCGTGATTGTAAATCAGTGGACCGTGAGATTTGTAAAATCTTGCAAGT-
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
** * * * * **
38587030 --AGGTCGTGATCATAAATTAGCGAATTGTGAGATTTGTAAAATCCTATAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * *
38587082 GAAGGTCGTGATTGTAAGTCAGAGGACCGTGAGATTCGTAAAATCTCGTAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * * * * * * *
38587136 GAAAGTCATGATCGTAAATCAACAGACTGTGATATTTGTAAAATCCTGAAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* ** * * *
38587190 GAAGGTCATGATCATAAATCAGCAGAGTATGAGATTCGTAAAATCCCGTAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * * *
38587244 AAAGGTCATGATCGTAAATCAGCAGACTGTGAGATTCATAAAATCCCGTAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* ** * * * *
38587298 AAAGGTCGTGAAGGTAAATCAGCAGACTGTGAGATTCATAAAATCTCGAAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * ** * ** *
38587352 AAAGGTCGTGATTGTAAATCAGTGGACCATGAGATTCATAAAATCCCAAAATTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * * * * *
38587406 AAAGGTCGTGGTTGTAAATCAGTGGACTGTGAGATTTGTAAAATCTCGAAAATA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * *
38587460 GAAGGTCATGATTGTAAATCAGTGGACCGTGAGATTCGTAAAATCACGTAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
38587514 GAAG
1 GAAG
38587518 CCACTTGTGG
Statistics
Matches: 405, Mismatches: 80, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
51 40 0.10
54 365 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (54 bp):
GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
Found at i:38589500 original size:15 final size:15
Alignment explanation
Indices: 38589480--38589511 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38589470 AGACCCGATA
*
38589480 CATACTCATGCAATT
1 CATACTCATGAAATT
38589495 CATACTCATGAAATT
1 CATACTCATGAAATT
38589510 CA
1 CA
38589512 ATGCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (15 bp):
CATACTCATGAAATT
Found at i:38589995 original size:46 final size:46
Alignment explanation
Indices: 38589893--38590054 Score: 258
Period size: 46 Copynumber: 3.6 Consensus size: 46
38589883 TACGTATGAT
* * **
38589893 CACTTGTCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-GGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38589936 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38589982 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
38590028 CACTTATCACTTTTTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
38590055 AGTACTCAAA
Statistics
Matches: 111, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
43 9 0.08
44 5 0.05
45 20 0.18
46 77 0.69
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:38593700 original size:21 final size:23
Alignment explanation
Indices: 38593669--38593710 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
38593659 AGCTTTATTT
38593669 TTCACCCATTTGATC-TTTTAAC
1 TTCACCCATTTGATCATTTTAAC
*
38593691 TTCA-CCATTTGTTCATTTTA
1 TTCACCCATTTGATCATTTTA
38593711 TAGCTATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.21, C:0.24, G:0.05, T:0.50
Consensus pattern (23 bp):
TTCACCCATTTGATCATTTTAAC
Found at i:38596054 original size:41 final size:41
Alignment explanation
Indices: 38596004--38596488 Score: 458
Period size: 41 Copynumber: 11.9 Consensus size: 41
38595994 TTCTAATCTT
* * *
38596004 TCGGGGCTTTAGAGGCATTTTTGGAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * ** * * *
38596045 TTGGGGCTTTAGTGGTATTTTTGAAAAAGCGTCGGTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
** * *
38596086 TTAGGGCTTTAGCGACGTTTTTGGAAAAGCCCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * *
38596127 TCGCGACTTTCGCGGCGTTTTTGGAAAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * *
38596168 CCGGGGCTTTCGCGGTGTTTTTGGAAAATCGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * *
38596209 TCGGGGCTTTTGCAGCATTTTTGGAAAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
38596250 TCGAGGCTTTCGCGGCGTTTTT-GAAAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * * *
38596290 TTGGGGATTTAGCGACTTTTTTGAAAAAGGGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
**
38596331 TCGGGGCTTTAGCGGCG-TTTTCCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGC
* * * ** *
38596372 TTGGGGATTTAGCGGTG-TTTTCCAAGAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGC
* *
38596413 TCGGGGCTTTAGCGACGTTTTTCAGG--AAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTT--GGAAAAGCGCCGCTAATGC
* **
38596454 TTGGGGCTTTAGCGGCGTTTTTTAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
38596489 AAAAAAAATT
Statistics
Matches: 366, Mismatches: 71, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
40 40 0.11
41 322 0.88
42 4 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:38596452 original size:204 final size:205
Alignment explanation
Indices: 38596004--38596485 Score: 489
Period size: 204 Copynumber: 2.4 Consensus size: 205
38595994 TTCTAATCTT
** * * *
38596004 TCGGGGCTTTAG-AGGCATTTTTGGAAAAGCGTCGCTAATGCTTGGGGCTTTAG-TG-GTATTTT
1 TCGGGGCTTTAGCA-GCATTTTTGG-AAAGCACCGCTAATGCTCGAGGCTTTAGCGGCGT-TTTT
* * *
38596066 TGAAAAAGCG-TCGGTAATGCTTAGGGCTTTAGCGACGTTTTTGGAAAAGCCCCGCTAATGCTCG
63 TG-AAAAGCGCTCGCTAATGCTTAGGGATTTAGCGACGTTTTTGAAAAAGCCCCGCTAATGCTCG
* ** * * **
38596130 CGACTTTCGCGGCGTTTTTGGAAAAGCACCGCTAATGCCCGGGGCTTTCGCGGTGTTTTTGGAAA
127 CGACTTTAGCGGCGTTTTTCCAAAAGCACCGCTAATGCCCGGGGATTTAGCGGTGTTTTTCCAAA
* *
38596195 ATCGCCACTAATGC
192 AGCACCACTAATGC
* * * *
38596209 TCGGGGCTTTTGCAGCATTTTTGGAAAAGCGCTGCTAATGCTCGAGGCTTTCGCGGCG-TTTTTG
1 TCGGGGCTTTAGCAGCATTTTTGG-AAAGCACCGCTAATGCTCGAGGCTTTAGCGGCGTTTTTTG
* * ** * *
38596273 AAAAGCGCT-GCTAATGCTTGGGGATTTAGCGACTTTTTTGAAAAAGGGCCGCTAATGCTCGGGG
65 AAAAGCGCTCGCTAATGCTTAGGGATTTAGCGACGTTTTTGAAAAAGCCCCGCTAATGCTCGCGA
* **
38596337 CTTTAGCGGCG-TTTTCCAAGAAGCGCCGCTAATGCTTGGGGATTTAGCGGTG-TTTTCCAAGAA
130 CTTTAGCGGCGTTTTTCCAA-AAGCACCGCTAATGCCCGGGGATTTAGCGGTGTTTTTCCAA-AA
*
38596400 GCACCGCTAATGC
193 GCACCACTAATGC
* * *
38596413 TCGGGGCTTTAGC-GACGTTTTTCAGG-AAGCACCGCTAATGCTTGGGGCTTTAGCGGCGTTTTT
1 TCGGGGCTTTAGCAG-CATTTTT--GGAAAGCACCGCTAATGCTCGAGGCTTTAGCGGCGTTTTT
*
38596476 TAAAAAGCGC
63 TGAAAAGCGC
38596486 CGCAAAAAAA
Statistics
Matches: 230, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
203 13 0.06
204 147 0.64
205 65 0.28
206 4 0.02
207 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (205 bp):
TCGGGGCTTTAGCAGCATTTTTGGAAAGCACCGCTAATGCTCGAGGCTTTAGCGGCGTTTTTTGA
AAAGCGCTCGCTAATGCTTAGGGATTTAGCGACGTTTTTGAAAAAGCCCCGCTAATGCTCGCGAC
TTTAGCGGCGTTTTTCCAAAAGCACCGCTAATGCCCGGGGATTTAGCGGTGTTTTTCCAAAAGCA
CCACTAATGC
Found at i:38601973 original size:43 final size:43
Alignment explanation
Indices: 38601920--38602076 Score: 190
Period size: 43 Copynumber: 3.7 Consensus size: 43
38601910 TTTTTGTGAG
* * * * * *
38601920 AAGCGTCGCTAAAGGT-TTGTTCTTTTGCGACGATTGAGATAAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGAT-AA
* *
38601963 AAGCGCCGCTAAAGGTCATGATATTTAGCGACGTTTGTGACAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGATAA
* * *
38602006 AAGCGCCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGATAA
*
38602049 AAGCACCGCTAAAGGTCATGATCTTTAG
1 AAGCGCCGCTAAAGGTCATGATCTTTAG
38602077 TGGCGTTTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 80 0.82
44 17 0.18
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGATAA
Found at i:38608846 original size:60 final size:61
Alignment explanation
Indices: 38608745--38608864 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 61
38608735 TTCATTTGCA
* *
38608745 AAATCTTAGTACTATATCTCCAAAATCTTTGTAATCTTAGTATTGTATTGGAATCGCCATT
1 AAATCTTAGTACTATATCTCCAAAATCTTTGTAATCCTAGTATTGTATTGGAATCACCATT
* *
38608806 AAAT-TTAGTACTATATTTGCAAAATCTTTGTAATCCTAGTATTGTATTGGAATCACCAT
1 AAATCTTAGTACTATATCTCCAAAATCTTTGTAATCCTAGTATTGTATTGGAATCACCAT
38608865 GGTAGTACTG
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
60 51 0.93
61 4 0.07
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.41
Consensus pattern (61 bp):
AAATCTTAGTACTATATCTCCAAAATCTTTGTAATCCTAGTATTGTATTGGAATCACCATT
Found at i:38608870 original size:25 final size:25
Alignment explanation
Indices: 38608842--38608893 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
38608832 TTTGTAATCC
* *
38608842 TAGTATTGTATTGGAATCACCATGG
1 TAGTACTGTATTGGAATAACCATGG
38608867 TAGTACTGTATTGGAATAACCATGG
1 TAGTACTGTATTGGAATAACCATGG
38608892 TA
1 TA
38608894 ACTTCTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (25 bp):
TAGTACTGTATTGGAATAACCATGG
Found at i:38610693 original size:21 final size:22
Alignment explanation
Indices: 38610664--38610710 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
38610654 AGACTAATTT
*
38610664 GAAACAAAACA-GAAAAATATG
1 GAAAAAAAACATGAAAAATATG
* *
38610685 GAAAAAAAACATGAAAATTTTG
1 GAAAAAAAACATGAAAAATATG
38610707 GAAA
1 GAAA
38610711 CATGGGTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.64, C:0.06, G:0.15, T:0.15
Consensus pattern (22 bp):
GAAAAAAAACATGAAAAATATG
Found at i:38615318 original size:40 final size:40
Alignment explanation
Indices: 38615270--38615417 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
38615260 GCAAACACAG
* * *
38615270 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
38615310 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
38615350 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
38615390 TTGCCTTCGGGTTTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
38615418 TCCAATGCTC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:38618835 original size:31 final size:30
Alignment explanation
Indices: 38618800--38618899 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
38618790 ATGCTATTTT
*
38618800 TTATTGTTTTATTTTTTTTACTGTTTTGTTG
1 TTATT-TTTTATTTTTTTTACTATTTTGTTG
* * *
38618831 TTATTTTCTTATTTTTTTCACTATTTTGCTA
1 TTATTTT-TTATTTTTTTTACTATTTTGTTG
** *
38618862 CCATTTTTCTATTATTTTGCTACTATTTTGTTG
1 TTATTTTT-TATT-TTTT-TTACTATTTTGTTG
38618895 TTATT
1 TTATT
38618900 GTTTGGGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
30 3 0.06
31 33 0.62
32 4 0.08
33 13 0.25
ACGTcount: A:0.14, C:0.10, G:0.08, T:0.68
Consensus pattern (30 bp):
TTATTTTTTATTTTTTTTACTATTTTGTTG
Found at i:38618867 original size:11 final size:11
Alignment explanation
Indices: 38618850--38618891 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
38618840 TATTTTTTTC
38618850 ACTATTTTGCT
1 ACTATTTTGCT
* *
38618861 ACCATTTTTCT
1 ACTATTTTGCT
*
38618872 ATTATTTTGCT
1 ACTATTTTGCT
38618883 ACTATTTTG
1 ACTATTTTG
38618892 TTGTTATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.57
Consensus pattern (11 bp):
ACTATTTTGCT
Found at i:38618898 original size:22 final size:22
Alignment explanation
Indices: 38618818--38618899 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
38618808 TTATTTTTTT
* *
38618818 TACTGTTTTGTTGTTATTTT-C
1 TACTATTTTGTTATTATTTTGC
* *
38618839 T--TATTTTTTTCACTATTTTGC
1 TACTATTTTGTT-ATTATTTTGC
*
38618860 TACCATTTT-TCTATTATTTTGC
1 TACTATTTTGT-TATTATTTTGC
*
38618882 TACTATTTTGTTGTTATT
1 TACTATTTTGTTATTATT
38618900 GTTTGGGTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
19 7 0.15
20 6 0.13
21 3 0.06
22 24 0.51
23 7 0.15
ACGTcount: A:0.15, C:0.12, G:0.09, T:0.65
Consensus pattern (22 bp):
TACTATTTTGTTATTATTTTGC
Found at i:38619023 original size:11 final size:11
Alignment explanation
Indices: 38619003--38619033 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
38618993 AAGTATACAT
38619003 ATTT-TTTTAA
1 ATTTGTTTTAA
38619013 ATTTGTTTTAA
1 ATTTGTTTTAA
38619024 ATTTGTTTTA
1 ATTTGTTTTA
38619034 GTGTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (11 bp):
ATTTGTTTTAA
Found at i:38638442 original size:29 final size:32
Alignment explanation
Indices: 38638409--38638475 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
38638399 TTTGTACTAT
38638409 GTTTTTG-CTTGA-CAT-GTGGTGCAATAATA
1 GTTTTTGACTTGAGCATGGTGGTGCAATAATA
* **
38638438 GTTTTGGACTTGAGTTTGGTGGTGCAATAATA
1 GTTTTTGACTTGAGCATGGTGGTGCAATAATA
38638470 -TTTTTG
1 GTTTTTG
38638476 TTTTATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 6 0.19
30 5 0.16
31 6 0.19
32 14 0.45
ACGTcount: A:0.21, C:0.07, G:0.27, T:0.45
Consensus pattern (32 bp):
GTTTTTGACTTGAGCATGGTGGTGCAATAATA
Found at i:38648561 original size:145 final size:145
Alignment explanation
Indices: 38648293--38648584 Score: 566
Period size: 145 Copynumber: 2.0 Consensus size: 145
38648283 GTAAACTCAG
38648293 TTTGCTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
1 TTTGCTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
*
38648358 ACAGTTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCTTCCATCCTCCAT
66 ACAGTTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCCTCCATCCTCCAT
38648423 AGCCAATTTCATGTA
131 AGCCAATTTCATGTA
*
38648438 TTTGGTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
1 TTTGCTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
38648503 ACAGTTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCCTCCATCCTCCAT
66 ACAGTTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCCTCCATCCTCCAT
38648568 AGCCAATTTCATGTA
131 AGCCAATTTCATGTA
38648583 TT
1 TT
38648585 ATGCACATAT
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (145 bp):
TTTGCTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
ACAGTTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCCTCCATCCTCCAT
AGCCAATTTCATGTA
Found at i:38655182 original size:27 final size:28
Alignment explanation
Indices: 38655114--38655183 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
38655104 ATGAGGAAAT
38655114 AATAGCCTTTGTGGTGAAGTTATGAAGG
1 AATAGCCTTTGTGGTGAAGTTATGAAGG
* *
38655142 AATAGCCTTAGTGGTGAA-TTTTGTAAGG
1 AATAGCCTTTGTGGTGAAGTTATG-AAGG
38655170 -ATAGCCTTTGTGGT
1 AATAGCCTTTGTGGT
38655184 ACACTTCAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.36
Consensus pattern (28 bp):
AATAGCCTTTGTGGTGAAGTTATGAAGG
Found at i:38662040 original size:20 final size:21
Alignment explanation
Indices: 38662015--38662068 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
38662005 CTAGAAATTG
*
38662015 GTATTGATACTTGTAA-GAGA
1 GTATTGATACTTGTAATGAAA
* * *
38662035 GTATTGACACCT-TAATTAAA
1 GTATTGATACTTGTAATGAAA
38662055 GTATTGATACTTGT
1 GTATTGATACTTGT
38662069 TGATTCAAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 3 0.12
20 22 0.85
21 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (21 bp):
GTATTGATACTTGTAATGAAA
Found at i:38671681 original size:20 final size:20
Alignment explanation
Indices: 38671656--38671704 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
38671646 CTATTGCCTC
*
38671656 TGTCCCTTCCACCATGG-TGT
1 TGTCCCTTCCACCA-GGCTAT
*
38671676 TGTCCCTTCCAGCAGGCTAT
1 TGTCCCTTCCACCAGGCTAT
38671696 TGTCCCTTC
1 TGTCCCTTC
38671705 AATGGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.10, C:0.37, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTCCCTTCCACCAGGCTAT
Found at i:38671798 original size:20 final size:21
Alignment explanation
Indices: 38671770--38671825 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
38671760 GTATCAACTG
* *
38671770 GAAAAGAGAAAGAA-AAGAGA
1 GAAAGGAGAAAGAAGAAGAAA
38671790 GAAAGGAG-AAGAAGAAGAAA
1 GAAAGGAGAAAGAAGAAGAAA
*
38671810 GAAAGAAAGAAAGAAG
1 GAAAG-GAGAAAGAAG
38671826 GTAATGCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 5 0.17
20 17 0.57
21 2 0.07
22 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (21 bp):
GAAAGGAGAAAGAAGAAGAAA
Found at i:38672114 original size:21 final size:21
Alignment explanation
Indices: 38672088--38672128 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
38672078 TTTAAATTTG
38672088 TAAGACTTCAATATTATATTA
1 TAAGACTTCAATATTATATTA
38672109 TAAGACTTCAATATTATATT
1 TAAGACTTCAATATTATATT
38672129 TGAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAGACTTCAATATTATATTA
Found at i:38672580 original size:19 final size:19
Alignment explanation
Indices: 38672556--38672598 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
38672546 GGTAAACCAA
38672556 ATTATCAATTTTATCTCCT
1 ATTATCAATTTTATCTCCT
38672575 ATTATCAATTTTATCTCCT
1 ATTATCAATTTTATCTCCT
38672594 ATTAT
1 ATTAT
38672599 AAAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATCAATTTTATCTCCT
Found at i:38674639 original size:32 final size:32
Alignment explanation
Indices: 38674598--38674661 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
38674588 GTTTATTGCA
38674598 ATTCAATATCTGGATGCTTTATCTTTCTGTAG
1 ATTCAATATCTGGATGCTTTATCTTTCTGTAG
*
38674630 ATTCAATATCTGGATGCTTTGTCTTTCTGTAG
1 ATTCAATATCTGGATGCTTTATCTTTCTGTAG
38674662 GGAAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (32 bp):
ATTCAATATCTGGATGCTTTATCTTTCTGTAG
Found at i:38678922 original size:15 final size:15
Alignment explanation
Indices: 38678902--38678930 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38678892 CTTTATTAGA
38678902 TCACATGATGTTGTG
1 TCACATGATGTTGTG
38678917 TCACATGATGTTGT
1 TCACATGATGTTGT
38678931 TTAGTTTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (15 bp):
TCACATGATGTTGTG
Found at i:38682540 original size:27 final size:27
Alignment explanation
Indices: 38682503--38682559 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
38682493 ATCAATTTAG
38682503 AGACATCAAATATAATTATTGCATTAT
1 AGACATCAAATATAATTATTGCATTAT
38682530 AGACATCAAATATAATTATTGCATTAT
1 AGACATCAAATATAATTATTGCATTAT
38682557 AGA
1 AGA
38682560 TTCGAGTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (27 bp):
AGACATCAAATATAATTATTGCATTAT
Found at i:38706241 original size:14 final size:15
Alignment explanation
Indices: 38706213--38706243 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
38706203 CACATATCAA
38706213 ATTTCTATGTATTTC
1 ATTTCTATGTATTTC
38706228 ATTTCTAT-TATTTC
1 ATTTCTATGTATTTC
38706242 AT
1 AT
38706244 CCACATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTCTATGTATTTC
Found at i:38709730 original size:53 final size:52
Alignment explanation
Indices: 38709633--38709740 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 52
38709623 GCCTCAAGAT
* *
38709633 TTTTTTTTGTCCAGTTAGGTACCTAAACTTAGTTTCAAGGTTCAATTTGATAC
1 TTTTTTTTGTCCAATTAGGTACCTAAACTTAGTTTCAA-GTTCAAATTGATAC
* **
38709686 TTTTTTTTGTCCAATTAGGTACTTAAACTTAGCTTTTTTA-TTCAAATTGATAC
1 TTTTTTTTGTCCAATTAGGTACCTAAACTTAG--TTTCAAGTTCAAATTGATAC
38709739 TT
1 TT
38709741 GAACTTAACT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 44 0.92
55 4 0.08
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (52 bp):
TTTTTTTTGTCCAATTAGGTACCTAAACTTAGTTTCAAGTTCAAATTGATAC
Found at i:38711840 original size:32 final size:32
Alignment explanation
Indices: 38711804--38711867 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
38711794 AGGTATAAAT
*
38711804 TTAAGGCCATAGTTGGTTCATTTGGTTTATAA
1 TTAAGGCCATAGTTGGTTCATTTGGTCTATAA
38711836 TTAAGGCCATAGTTGGTTCATTTGGTCTATAA
1 TTAAGGCCATAGTTGGTTCATTTGGTCTATAA
38711868 ACGCCTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (32 bp):
TTAAGGCCATAGTTGGTTCATTTGGTCTATAA
Found at i:38712593 original size:23 final size:21
Alignment explanation
Indices: 38712562--38712607 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
38712552 AATTACAAAA
38712562 TTTTAAACTTATAATAAAAATAT
1 TTTTAAACTT-TAA-AAAAATAT
* *
38712585 TTTTTAACTTTCAAAAAATAT
1 TTTTAAACTTTAAAAAAATAT
38712606 TT
1 TT
38712608 AATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTAAACTTTAAAAAAATAT
Found at i:38715381 original size:18 final size:17
Alignment explanation
Indices: 38715348--38715386 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
38715338 TTGTATAAAT
38715348 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
38715366 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
38715383 TGTG
1 TGTG
38715387 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:38715639 original size:23 final size:23
Alignment explanation
Indices: 38715612--38715709 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
38715602 AGTGTTATTG
38715612 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
38715635 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
38715658 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
38715680 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
38715703 ATCAGTG
1 ATCAGTG
38715710 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:38715678 original size:45 final size:45
Alignment explanation
Indices: 38715614--38715702 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
38715604 TGTTATTGAT
* *
38715614 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
38715659 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
38715703 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:38728531 original size:25 final size:25
Alignment explanation
Indices: 38728497--38728547 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
38728487 AACAAAAGTG
38728497 AACATGAAGAAGACTTAATTTCAAT
1 AACATGAAGAAGACTTAATTTCAAT
38728522 AACATGAAGAAGACTTAATTTCAAT
1 AACATGAAGAAGACTTAATTTCAAT
38728547 A
1 A
38728548 TTCTCAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (25 bp):
AACATGAAGAAGACTTAATTTCAAT
Found at i:38734343 original size:19 final size:19
Alignment explanation
Indices: 38734319--38734372 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 19
38734309 AAAGCTGTAT
38734319 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
*
38734338 ACAATTAGAAC-CT--GTAT
1 ACAATTAGAACTCTAAG-AC
38734355 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
38734373 TTACATAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 1 0.03
17 12 0.40
18 4 0.13
19 12 0.40
20 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:38734353 original size:36 final size:36
Alignment explanation
Indices: 38734302--38734372 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
38734292 ATCAAAGGCT
*
38734302 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAACCTGTATACAATTAGAACTCTAAGAC
*
38734338 ACAATTAGAACCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAACCTGTATACAATTAGAACTCTAAGA
38734373 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.25
Consensus pattern (36 bp):
ACAATTAAAACCTGTATACAATTAGAACTCTAAGAC
Found at i:38734360 original size:17 final size:17
Alignment explanation
Indices: 38734301--38734365 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
38734291 CATCAAAGGC
* *
38734301 TACAATTAAAAGCTGTA
1 TACAATTAGAACCTGTA
38734318 TACAATTAGAACTCTAAG-A
1 TACAATTAGAAC-CT--GTA
*
38734337 CACAATTAGAACCTGTA
1 TACAATTAGAACCTGTA
38734354 TACAATTAGAAC
1 TACAATTAGAAC
38734366 TCTAAGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 1 0.03
17 22 0.55
18 4 0.10
19 12 0.30
20 1 0.03
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (17 bp):
TACAATTAGAACCTGTA
Found at i:38746607 original size:35 final size:35
Alignment explanation
Indices: 38746524--38746594 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
38746514 AACATGAATG
*
38746524 AACAACTCAAAGACAAGTCGAGATGGACCTTGGAA
1 AACAACTCAAAGACAAATCGAGATGGACCTTGGAA
38746559 AACAACTCAAAGACAAATCGAGATGGACCTTGGAA
1 AACAACTCAAAGACAAATCGAGATGGACCTTGGAA
38746594 A
1 A
38746595 TTTGAATCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (35 bp):
AACAACTCAAAGACAAATCGAGATGGACCTTGGAA
Found at i:38760836 original size:13 final size:13
Alignment explanation
Indices: 38760818--38760842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38760808 ATAATGACTC
38760818 TAAAAATATTTAA
1 TAAAAATATTTAA
38760831 TAAAAATATTTA
1 TAAAAATATTTA
38760843 CGGCTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATATTTAA
Found at i:38764700 original size:37 final size:37
Alignment explanation
Indices: 38764654--38764779 Score: 164
Period size: 37 Copynumber: 3.4 Consensus size: 37
38764644 AGCTTTTCGG
38764654 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
1 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
* * *
38764691 AGCACCTGGCTTGTTATCAGGTGGATTAGCTCTTATA
1 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
* ** *
38764728 AGCATTTGGTGTGTTATTAGGTGGATTAGATCTTATGA
1 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTAT-A
*
38764766 A-CATTTGGCATGTT
1 AGCATCTGGCATGTT
38764780 TCAGTTGGAC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
37 75 0.97
38 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.39
Consensus pattern (37 bp):
AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
Found at i:38769813 original size:16 final size:18
Alignment explanation
Indices: 38769782--38769819 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
38769772 AAAAATAAAA
*
38769782 ATAAAAATGAATAGAA-C
1 ATAAAAATGAACAGAATC
38769799 ATAAAAAT-AACAGAATC
1 ATAAAAATGAACAGAATC
38769816 ATAA
1 ATAA
38769820 TGTAATACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.18
Consensus pattern (18 bp):
ATAAAAATGAACAGAATC
Found at i:38779537 original size:171 final size:171
Alignment explanation
Indices: 38779252--38779595 Score: 643
Period size: 171 Copynumber: 2.0 Consensus size: 171
38779242 AAGAGATGAT
*
38779252 GGTAACAAAAAACAAGACATTGAATAGGTAGGTCTTGCTTGCAAAACACTTTTAATAAAAACTTC
1 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
* *
38779317 TTTCCCTCCTTAGAAGAGTGGTTTAATAGACCAAATATCTATTCGGCTGTTCATACGATCTTTTA
66 TTTCCCTCCTTAGAAGAGTGGTTCAATACACCAAATATCTATTCGGCTGTTCATACGATCTTTTA
38779382 ATAATTGGAAAGCCTACCTTCTGTTTTGACCCACAAAATAA
131 ATAATTGGAAAGCCTACCTTCTGTTTTGACCCACAAAATAA
38779423 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
1 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
*
38779488 TTTCCCTCCTTAGAAGAGTGGTTCAATACACGAAATATCTATTCGGCTGTTCATACGATCTTTTA
66 TTTCCCTCCTTAGAAGAGTGGTTCAATACACCAAATATCTATTCGGCTGTTCATACGATCTTTTA
*
38779553 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
131 ATAATTGGAAAGCCTACCTTCTGTTTTGACCCACAAAATAA
38779594 GG
1 GG
38779596 GAGCCCCAAA
Statistics
Matches: 168, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 168 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (171 bp):
GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
TTTCCCTCCTTAGAAGAGTGGTTCAATACACCAAATATCTATTCGGCTGTTCATACGATCTTTTA
ATAATTGGAAAGCCTACCTTCTGTTTTGACCCACAAAATAA
Found at i:38782307 original size:24 final size:24
Alignment explanation
Indices: 38782280--38782333 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
38782270 AAATAAAATA
38782280 CAAAAAAA-AGGAAAACATCATATT
1 CAAAAAAAGAGG-AAACATCATATT
* **
38782304 CAAAAAAAGAGGTAATTTCATATT
1 CAAAAAAAGAGGAAACATCATATT
38782328 CAAAAA
1 CAAAAA
38782334 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.59, C:0.11, G:0.09, T:0.20
Consensus pattern (24 bp):
CAAAAAAAGAGGAAACATCATATT
Found at i:38785965 original size:26 final size:26
Alignment explanation
Indices: 38785935--38786009 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
38785925 TGGAGGAAGT
* * *
38785935 ATACTGTTACTGGCAACTTTGTTGCG
1 ATACTGCTACTGGCAACTTTGCTCCG
38785961 ATACTGCTACTGGCAACTTTGCTCCG
1 ATACTGCTACTGGCAACTTTGCTCCG
*
38785987 ATACTGCTACTGGCAGCTTTGCT
1 ATACTGCTACTGGCAACTTTGCT
38786010 ACGGTATTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
ATACTGCTACTGGCAACTTTGCTCCG
Found at i:38794634 original size:26 final size:26
Alignment explanation
Indices: 38794600--38794706 Score: 124
Period size: 26 Copynumber: 4.1 Consensus size: 26
38794590 TGGAGGAAGT
* *
38794600 ATACTGTTACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
* * * * *
38794626 ATATTGTTATTGGCAGCTCTACCGTG
1 ATACTGTTACTGGCAGCTTTACTGCG
* *
38794652 ATACTGTTACTGGCAGCTTTGCTACG
1 ATACTGTTACTGGCAGCTTTACTGCG
*
38794678 ATACTATTACTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
38794704 ATA
1 ATA
38794707 TTGGTGTGTT
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCG
Found at i:38804658 original size:47 final size:47
Alignment explanation
Indices: 38804589--38805043 Score: 730
Period size: 47 Copynumber: 9.6 Consensus size: 47
38804579 AGTATATGTG
* *
38804589 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
38804638 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
38804685 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
38804732 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
38804779 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
38804826 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
38804873 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGAT
* * *
38804922 GAATGTGAAGGTGTATATATGTAATAAGGCCTAATAGTCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
* * * * * * *
38804969 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
* * *
38805016 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
38805044 TCCCGAAGGG
Statistics
Matches: 382, Mismatches: 22, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
47 326 0.85
49 56 0.15
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
Found at i:38828876 original size:15 final size:16
Alignment explanation
Indices: 38828831--38828883 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
38828821 TCATTTCTCA
*
38828831 TCATC-CATTATCC-C
1 TCATCTCATCATCCTC
38828845 TCATCTCATCATCCCTC
1 TCATCTCATCAT-CCTC
*
38828862 TCATCT-TTCATCCTC
1 TCATCTCATCATCCTC
38828877 TC-TCTCA
1 TCATCTCA
38828884 ACTCTCTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 8 0.25
15 11 0.34
16 6 0.19
17 7 0.22
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (16 bp):
TCATCTCATCATCCTC
Found at i:38838069 original size:51 final size:51
Alignment explanation
Indices: 38837979--38838101 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 51
38837969 TGATAGGGCG
* * * * *
38837979 CATGTGTAGTGCTATGTGCAGGCTACTATGCGTACCGGATAGCTTC-GATAA
1 CATGTGTAGTACTATGTGCAGACTAATACGCGTACCGGATAG-TGCTGATAA
* * * * *
38838030 CGTGTGTAGTACTATGTGCAGACTAATACGTGTATCGGATAGTGCTGGTCA
1 CATGTGTAGTACTATGTGCAGACTAATACGCGTACCGGATAGTGCTGATAA
38838081 CATGTGTAGTACTATGTGCAG
1 CATGTGTAGTACTATGTGCAG
38838102 GCTACTATGT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 2 0.03
51 58 0.97
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGACTAATACGCGTACCGGATAGTGCTGATAA
Found at i:38838118 original size:102 final size:101
Alignment explanation
Indices: 38837931--38838118 Score: 252
Period size: 102 Copynumber: 1.9 Consensus size: 101
38837921 GATGGTCACA
* * * *
38837931 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGATAGGGCGCATGTGTAGTGCTATGT
1 TGTGTAGTACTATGTGCAGACTAATACGTGTACCAAAATGATAGGGCACATGTGTAGTACTATGT
*
38837996 GCAGGCTACTATGCGTACCGGATAGCTTCGATAACG
66 GCAGGCTACTATGCGAACCGGATAGCTTCGATAACG
* * * * *
38838032 TGTGTAGTACTATGTGCAGACTAATACGTGTATCGGATAGTGCT-GGTCACATGTGTAGTACTAT
1 TGTGTAGTACTATGTGCAGACTAATACGTGTA-C-CAAAATGATAGGGCACATGTGTAGTACTAT
*
38838096 GTGCAGGCTACTATGTGAACCGG
64 GTGCAGGCTACTATGCGAACCGG
38838119 TATCATTAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
101 30 0.41
102 39 0.53
103 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTATGTGCAGACTAATACGTGTACCAAAATGATAGGGCACATGTGTAGTACTATGT
GCAGGCTACTATGCGAACCGGATAGCTTCGATAACG
Found at i:38838357 original size:16 final size:16
Alignment explanation
Indices: 38838336--38838367 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38838326 TGATTGAAAG
38838336 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
38838352 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
38838368 GCAACAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:38838744 original size:11 final size:11
Alignment explanation
Indices: 38838728--38838752 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38838718 TTATGGTAAT
38838728 TGAAATAGGGG
1 TGAAATAGGGG
38838739 TGAAATAGGGG
1 TGAAATAGGGG
38838750 TGA
1 TGA
38838753 CTTTAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (11 bp):
TGAAATAGGGG
Found at i:38839996 original size:59 final size:60
Alignment explanation
Indices: 38839903--38840022 Score: 215
Period size: 59 Copynumber: 2.0 Consensus size: 60
38839893 ACTCGAAGAT
*
38839903 AATAATTTGAAAGTTTTTTAATTTGGATGAAATTTTATAACTTGATTTAATATGTTTATA
1 AATAATTTGAAAGTTTTTTAATTTGGATGAAATTTTATAACTCGATTTAATATGTTTATA
*
38839963 AATAATTTGGAAG-TTTTTAATTTGGATGAAATTTTATAACTCGATTTAATATGTTTATA
1 AATAATTTGAAAGTTTTTTAATTTGGATGAAATTTTATAACTCGATTTAATATGTTTATA
38840022 A
1 A
38840023 GTGTATTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 46 0.79
60 12 0.21
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.48
Consensus pattern (60 bp):
AATAATTTGAAAGTTTTTTAATTTGGATGAAATTTTATAACTCGATTTAATATGTTTATA
Found at i:38840236 original size:22 final size:23
Alignment explanation
Indices: 38840211--38840255 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
38840201 CCTAATTCTA
*
38840211 ATATAAGTTGATAAA-AAT-TAAT
1 ATATAAATT-ATAAATAATATAAT
38840233 ATATAAATTATAAATAATATAAT
1 ATATAAATTATAAATAATATAAT
38840256 TTTATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATAAATTATAAATAATATAAT
Found at i:38843163 original size:125 final size:125
Alignment explanation
Indices: 38842941--38844697 Score: 2904
Period size: 125 Copynumber: 14.1 Consensus size: 125
38842931 CAATTCAAAC
* * * *
38842941 GATTAAAGCCACCTCGGTAAATCTTGATTAAAGCTACAACAGCAAATCTTATGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
38843006 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGTAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
** *
38843066 GATTAAAGCCACAGGGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATC
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* * *
38843131 CAGTGTAATAGATTAAAGCGAAATTGGTGAATCTTGTTTCTCCGACATTGTAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
** *
38843191 GATTAAAGCCACAGGGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATC
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* * *
38843256 CAGTGTAATAGATTAAAGCGAAATTGGTGAATCTTGTTTCTCCGACATTGTAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
38843316 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATT
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
38843381 CAGTGGAATACATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * *
38843441 GATTAAAGTCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAAAG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
38843506 CAGTGGAATACATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGTAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* *
38843566 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGATC
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
38843631 CAGTGTAATAGATTAAAGCGAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* *
38843691 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAACGAATCTTACGCCCCAAGCGATT
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
38843756 CAGTGGAATACATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * *
38843816 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTAAAACAGCGAATCTTATGCCCCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* * *
38843881 CAATGGAATAGATTAAAGCCAAATTTGTGAATCTTGTTTCTCCAACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * *
38843941 GATTAAAGCCACATTGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAAAG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
38844006 CAGTGGAATACATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* *
38844066 GATGAAAGCCACATCGGTGAATCTTGA-TAACAACTACAACAGCGAATCTTACGCCCCAAGCGAT
1 GATTAAAGCCACATCGGTGAATCTTGATTAA-AGCTACAACAGCGAATCTTACGCCCCAAGCGAT
* * * *
38844130 CCAGTGTAATAGATTAAAGCGAAATTGGTGAATCTTGTTTCTCCGACATTGTAGTTAAAAA
65 GCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* *
38844191 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAACGAATCTTACGCCCCAAGCGATT
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* * *
38844256 CAGTGGAATACATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAATTAAATA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* *
38844316 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAACGAATCTTACGCCCCAAGCGATT
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* * *
38844381 CAGTGGAATACATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAATTAAATA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* *
38844441 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTAAAACAGCGAATCTTACGCCCCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
38844506 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAATTAAATA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
38844566 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCTAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* * * *
38844631 CAGTGGAACAGATTAAAACCAAGTTGGTGAATCTTGTTTCTCCAACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
38844691 GATTAAA
1 GATTAAA
38844698 TGACAAATCT
Statistics
Matches: 1543, Mismatches: 87, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
124 3 0.00
125 1537 1.00
126 3 0.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (125 bp):
GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:38843362 original size:25 final size:25
Alignment explanation
Indices: 38843316--38843365 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
38843306 TAGTTAAAAA
* * *
38843316 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
38843341 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
38843366 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:38844612 original size:25 final size:25
Alignment explanation
Indices: 38844566--38844615 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
38844556 CAATTAAATA
* * *
38844566 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
38844591 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
38844616 ACGCCCTAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:38846309 original size:3 final size:3
Alignment explanation
Indices: 38846301--38846343 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
38846291 ATAAATTTCA
*
38846301 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
38846344 GCTTTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38847256 original size:110 final size:110
Alignment explanation
Indices: 38846977--38847482 Score: 858
Period size: 110 Copynumber: 4.6 Consensus size: 110
38846967 TCAAAAAAGA
* * *
38846977 AAAATATTTCTAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCTTAAGGTGCT
1 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCT
*
38847042 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
65 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTT
*
38847088 -AAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
38847152 GGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTT
38847197 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
38847262 GGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTT
38847307 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
* * *
38847372 GGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATA-CC-CCTT
66 GGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTT
* * * *
38847415 CAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACT
1 -AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCT
38847479 GGGT
65 GGGT
38847483 TTCAATTTCT
Statistics
Matches: 380, Mismatches: 13, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
108 23 0.06
109 146 0.38
110 211 0.56
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (110 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTT
Found at i:38847422 original size:219 final size:218
Alignment explanation
Indices: 38846977--38847482 Score: 863
Period size: 219 Copynumber: 2.3 Consensus size: 218
38846967 TCAAAAAAGA
* *
38846977 AAAATATTTCTAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCTTAAGGTGCT
1 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
38847042 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTTAAAATTTCAAAATAAGGCA
65 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTTAAAATTTCAAAATAAGGCA
38847107 ATGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTC
130 ATGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTC
* * *
38847172 AACCAAATGGCTTAATATCCTTCTT
195 AACCAAATAGCTAAATACCCTTC-T
*
38847197 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
38847262 GGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTTAAAAATTTCAAAATAAGGCA
66 GGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTT-AAAATTTCAAAATAAGGCA
*
38847327 ATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTC
130 ATGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTC
38847392 AACCAAATAGCTAAATACCCCTTC-
195 AACCAAATAGCTAAATA-CCCTTCT
* * *
38847416 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
38847480 GGT
66 GGT
38847483 TTCAATTTCT
Statistics
Matches: 272, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
218 20 0.07
219 145 0.53
220 102 0.38
221 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (218 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTCTTAAAATTTCAAAATAAGGCAA
TGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCA
ACCAAATAGCTAAATACCCTTCT
Found at i:38848501 original size:24 final size:23
Alignment explanation
Indices: 38848452--38848509 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
38848442 CAATAATAGA
* *
38848452 AATATTAAAATATATTCAAAATT
1 AATATTAAAATATATTAAAAAAT
38848475 AATATTGAAAATAT-TTAATAAAAT
1 AATATT-AAAATATATTAA-AAAAT
38848499 AAT-TTATAAAT
1 AATATTA-AAAT
38848510 TTTTGAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 1 0.03
23 15 0.50
24 14 0.47
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AATATTAAAATATATTAAAAAAT
Found at i:38849894 original size:32 final size:32
Alignment explanation
Indices: 38849800--38849897 Score: 82
Period size: 32 Copynumber: 3.2 Consensus size: 32
38849790 AGCCTTTAAT
*
38849800 AATTTTTAAAAT--TTTTAATTAGAC-C-CCC
1 AATTTTTAAAATAATTTTAATTAGACTCTCCA
* * * * * *
38849828 AATTTTTTAGA-AATTCTCATTAGCCT-TCTAA
1 AATTTTTAAAATAATTTTAATTAGACTCTC-CA
38849859 AATTTTTAAAATAATTTTAATTAGACTCTCCA
1 AATTTTTAAAATAATTTTAATTAGACTCTCCA
38849891 AATTTTT
1 AATTTTT
38849898 TGGAGATCCT
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
28 9 0.18
29 9 0.18
30 1 0.02
31 9 0.18
32 20 0.40
33 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (32 bp):
AATTTTTAAAATAATTTTAATTAGACTCTCCA
Found at i:38849922 original size:63 final size:59
Alignment explanation
Indices: 38849784--38849923 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 59
38849774 TGAAAAGTTA
* * *
38849784 TCATTAAGCCTTTAATAATTTTTAAAATTTTTAATTAGACCCCCAATTTTTTAGAAATTC
1 TCATTAAGCCTCTAA-AATTTTTAAAATTTTTAATTAGACCCCAAATTTTTTAGAAATCC
* *
38849844 TCATT-AGCCTTCTAAAATTTTTAAAATAATTTTAATTAGACTCTCCAAATTTTTTGGAGATCC
1 TCATTAAGCC-TCTAAAATTTTTAAAAT--TTTTAATTAGAC-C-CCAAATTTTTTAGAAATCC
*
38849907 TCATTAAGCCCCTAAAA
1 TCATTAAGCCTCTAAAA
38849924 GTTCTAAGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
59 16 0.24
60 9 0.13
61 12 0.18
62 1 0.01
63 26 0.38
64 4 0.06
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.41
Consensus pattern (59 bp):
TCATTAAGCCTCTAAAATTTTTAAAATTTTTAATTAGACCCCAAATTTTTTAGAAATCC
Found at i:38850274 original size:71 final size:70
Alignment explanation
Indices: 38850124--38850260 Score: 238
Period size: 70 Copynumber: 1.9 Consensus size: 70
38850114 TTTCTGAAAT
*
38850124 AAATAGAAAAAAAAACCAAAAATGTGATAATTTTAGAAACATAGCAAAAAAAAAAACTGAGAAAA
1 AAATA-AAAAAAAAACCAAAAATGTGATAATTTTAGAAACATAGCAAAAAAAAAAACTAAGAAAA
38850189 AAAAAA
65 AAAAAA
*
38850195 AAAAAAAAAAAAAACCAAAAATGTGATAATTTTAGAAACATAGCAAAAAAAAAAAACTAAGAAAA
1 AAATAAAAAAAAAACCAAAAATGTGATAATTTTAGAAACATAGC-AAAAAAAAAAACTAAGAAAA
38850260 A
65 A
38850261 TCTCAAAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
70 39 0.62
71 24 0.38
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (70 bp):
AAATAAAAAAAAAACCAAAAATGTGATAATTTTAGAAACATAGCAAAAAAAAAAACTAAGAAAAA
AAAAA
Found at i:38850520 original size:15 final size:16
Alignment explanation
Indices: 38850494--38850523 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38850484 ATATATATAT
38850494 ATATATTATTTTTAAG
1 ATATATTATTTTTAAG
38850510 ATATA-TATTTTTAA
1 ATATATTATTTTTAA
38850524 TTTATGGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATATTATTTTTAAG
Found at i:38851274 original size:27 final size:27
Alignment explanation
Indices: 38851233--38851370 Score: 109
Period size: 27 Copynumber: 5.1 Consensus size: 27
38851223 AACACGTCAA
*
38851233 GAAAGGAAAGTCTTTGTGGTGAAATAT
1 GAAAGGAAAGCCTTTGTGGTGAAATAT
***
38851260 GAAAGGAAAGCCTTTGTGACAAAATA-
1 GAAAGGAAAGCCTTTGTGGTGAAATAT
* * * *
38851286 CAAGAGAAAAGCCTTTGTAGCGAAATAT
1 GAA-AGGAAAGCCTTTGTGGTGAAATAT
* * *
38851314 GAAAAGAAAGTCTTTGTAGTG-AATCAT
1 GAAAGGAAAGCCTTTGTGGTGAAAT-AT
* * * *
38851341 GAAAGAAAAGCTTTTATGGTGAATTAT
1 GAAAGGAAAGCCTTTGTGGTGAAATAT
38851368 GAA
1 GAA
38851371 TGGATAGTCT
Statistics
Matches: 86, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
26 5 0.06
27 77 0.90
28 4 0.05
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (27 bp):
GAAAGGAAAGCCTTTGTGGTGAAATAT
Found at i:38853983 original size:49 final size:48
Alignment explanation
Indices: 38853893--38853985 Score: 141
Period size: 49 Copynumber: 1.9 Consensus size: 48
38853883 AGTGTCGTCC
* * *
38853893 CATCTAGAGTTAATACTAAAAGTAATCCATTGAAAGTTGGTGCCCTCA
1 CATCTAGAATTAACACTAAAAATAATCCATTGAAAGTTGGTGCCCTCA
*
38853941 CATCTAGAATTAACACTAAAAAATAATTCATTGAAAGTTGGTGCC
1 CATCTAGAATTAACACT-AAAAATAATCCATTGAAAGTTGGTGCC
38853986 TCCAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 15 0.38
49 25 0.62
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (48 bp):
CATCTAGAATTAACACTAAAAATAATCCATTGAAAGTTGGTGCCCTCA
Found at i:38857692 original size:353 final size:353
Alignment explanation
Indices: 38857046--38857751 Score: 1385
Period size: 353 Copynumber: 2.0 Consensus size: 353
38857036 TTTGGAAGTT
38857046 GTAGATCCAATTCTGAGGGATGGCTCGAGAAGTGAAATAACGAGATGTATCCAGCTTGGGTTGCT
1 GTAGATCCAATTCTGAGGGATGGCTCGAGAAGTGAAATAACGAGATGTATCCAGCTTGGGTTGCT
*
38857111 TTGTGTTCAAGAAGATACTGCTTATAGACCTACCATGGCCTCTGCGGTTCTCATGCTTAGTAGCT
66 TTGTGTTCAAGAAGATACTGCTTATAGACCAACCATGGCCTCTGCGGTTCTCATGCTTAGTAGCT
38857176 ATTCCATCTCTCTTCCAATGCCATCGGCACCTCCATTGTCTATGCATTCCATCAGGGAGAGAGAA
131 ATTCCATCTCTCTTCCAATGCCATCGGCACCTCCATTGTCTATGCATTCCATCAGGGAGAGAGAA
38857241 ACGAAGTCGAAGTCATCATCCTTCTCTAATCAATCTAAAAGAGAAACCGTCCAAGTCTCTGTCAA
196 ACGAAGTCGAAGTCATCATCCTTCTCTAATCAATCTAAAAGAGAAACCGTCCAAGTCTCTGTCAA
38857306 TTAGGCTTTGGTTTCTGAACTAGATCGTCATTGAAGTTTGAAGATGGTACTTTGTACTTCCATAA
261 TTAGGCTTTGGTTTCTGAACTAGATCGTCATTGAAGTTTGAAGATGGTACTTTGTACTTCCATAA
*
38857371 CATATTTTCTCTTACATGGTAATCATAA
326 CATATTTTCTCTTACATAGTAATCATAA
*
38857399 GTAGATCCAATTCTGAGGGATGGCTTGAGAAGTGAAATAACGAGATGTATCCAGCTTGGGTTGCT
1 GTAGATCCAATTCTGAGGGATGGCTCGAGAAGTGAAATAACGAGATGTATCCAGCTTGGGTTGCT
38857464 TTGTGTTCAAGAAGATACTGCTTATAGACCAACCATGGCCTCTGCGGTTCTCATGCTTAGTAGCT
66 TTGTGTTCAAGAAGATACTGCTTATAGACCAACCATGGCCTCTGCGGTTCTCATGCTTAGTAGCT
38857529 ATTCCATCTCTCTTCCAATGCCATCGGCACCTCCATTGTCTATGCATTCCATCAGGGAGAGAGAA
131 ATTCCATCTCTCTTCCAATGCCATCGGCACCTCCATTGTCTATGCATTCCATCAGGGAGAGAGAA
38857594 ACGAAGTCGAAGTCATCATCCTTCTCTAATCAATCTAAAAGAGAAACCGTCCAAGTCTCTGTCAA
196 ACGAAGTCGAAGTCATCATCCTTCTCTAATCAATCTAAAAGAGAAACCGTCCAAGTCTCTGTCAA
38857659 TTAGGCTTTGGTTTCTGAACTAGATCGTCATTGAAGTTTGAAGATGGTACTTTGTACTTCCATAA
261 TTAGGCTTTGGTTTCTGAACTAGATCGTCATTGAAGTTTGAAGATGGTACTTTGTACTTCCATAA
38857724 CATATTTTCTCTTACATAGTAATCATAA
326 CATATTTTCTCTTACATAGTAATCATAA
38857752 AAAAGAAAAA
Statistics
Matches: 350, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
353 350 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (353 bp):
GTAGATCCAATTCTGAGGGATGGCTCGAGAAGTGAAATAACGAGATGTATCCAGCTTGGGTTGCT
TTGTGTTCAAGAAGATACTGCTTATAGACCAACCATGGCCTCTGCGGTTCTCATGCTTAGTAGCT
ATTCCATCTCTCTTCCAATGCCATCGGCACCTCCATTGTCTATGCATTCCATCAGGGAGAGAGAA
ACGAAGTCGAAGTCATCATCCTTCTCTAATCAATCTAAAAGAGAAACCGTCCAAGTCTCTGTCAA
TTAGGCTTTGGTTTCTGAACTAGATCGTCATTGAAGTTTGAAGATGGTACTTTGTACTTCCATAA
CATATTTTCTCTTACATAGTAATCATAA
Found at i:38857788 original size:36 final size:36
Alignment explanation
Indices: 38857741--38857812 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
38857731 TCTCTTACAT
38857741 AGTAATCATAAAAAAGAAAAATAAAAAAGGTTCAAA
1 AGTAATCATAAAAAAGAAAAATAAAAAAGGTTCAAA
38857777 AGTAATCATAAAAAAGAAAAATAAAAAAGGTTCAAA
1 AGTAATCATAAAAAAGAAAAATAAAAAAGGTTCAAA
38857813 TTTAAACACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.67, C:0.06, G:0.11, T:0.17
Consensus pattern (36 bp):
AGTAATCATAAAAAAGAAAAATAAAAAAGGTTCAAA
Found at i:38859102 original size:45 final size:44
Alignment explanation
Indices: 38859034--38859124 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
38859024 AGTATAATAA
** * * **
38859034 CACATTTAGTCCTTCATACTTACACATTCTATCCGTTTGATCCTT
1 CACATTTAACCCTTCACACTTACAAATTCTATCAATTTGA-CCTT
*
38859079 CACATTTAACCCTTCACATTTACAAATTCTATCAATTTGACCTT
1 CACATTTAACCCTTCACACTTACAAATTCTATCAATTTGACCTT
38859123 CA
1 CA
38859125 AATACATACA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 6 0.15
45 33 0.85
ACGTcount: A:0.27, C:0.29, G:0.04, T:0.40
Consensus pattern (44 bp):
CACATTTAACCCTTCACACTTACAAATTCTATCAATTTGACCTT
Found at i:38859221 original size:24 final size:26
Alignment explanation
Indices: 38859174--38859226 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
38859164 GGAAAAAAAT
38859174 ATAATATTATTTATATGTTTATA-TAA
1 ATAATATTA-TTATATGTTTATATTAA
*
38859200 ATAATATTA-TATGTGTTTATATTAA
1 ATAATATTATTATATGTTTATATTAA
38859225 AT
1 AT
38859227 TATAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 11 0.44
25 5 0.20
26 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (26 bp):
ATAATATTATTATATGTTTATATTAA
Found at i:38861466 original size:20 final size:21
Alignment explanation
Indices: 38861427--38861472 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
38861417 ATCTCATTCC
38861427 CATGCAACATATCAAACATG-
1 CATGCAACATATCAAACATGA
*
38861447 CATGCAACATAT-ATATCATGA
1 CATGCAACATATCA-AACATGA
38861468 CATGC
1 CATGC
38861473 CCATATACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 17 0.74
21 5 0.22
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (21 bp):
CATGCAACATATCAAACATGA
Found at i:38861540 original size:27 final size:27
Alignment explanation
Indices: 38861503--38861648 Score: 224
Period size: 27 Copynumber: 5.4 Consensus size: 27
38861493 CATAAATCAT
38861503 ACAGTCATTTTATAACATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
*
38861530 ACTGTCATTTTATAACATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
*
38861557 ACAGTCATTTTATAACATAGGGGCTTA
1 ACAGTCATTTTATAACATAGGGGCATA
*
38861584 ACAGTCATTTTATAGCATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
*
38861611 ATAGTCATTTTACT-ACAT-GAGGGCATA
1 ACAGTCATTTTA-TAACATAG-GGGCATA
38861638 ACAGTCATTTT
1 ACAGTCATTTT
38861649 TTAATAGTTT
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 107 0.98
28 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (27 bp):
ACAGTCATTTTATAACATAGGGGCATA
Found at i:38868739 original size:34 final size:32
Alignment explanation
Indices: 38868691--38868754 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 32
38868681 AATAACAGTC
38868691 CAGTTCAGTTGGGCCCTAGCCCATTATAGTAT
1 CAGTTCAGTTGGGCCCTAGCCCATTATAGTAT
*
38868723 CAGTATCAGTGTGGGCCTTAGCCCATTATAGT
1 CAGT-TCAGT-TGGGCCCTAGCCCATTATAGT
38868755 GATAGTAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 4 0.14
33 5 0.17
34 20 0.69
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (32 bp):
CAGTTCAGTTGGGCCCTAGCCCATTATAGTAT
Found at i:38869071 original size:27 final size:27
Alignment explanation
Indices: 38869035--38869100 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
38869025 CATAAATCAT
38869035 ACAGTCATTTTATAACATAGGGGAATA
1 ACAGTCATTTTATAACATAGGGGAATA
* * *
38869062 ATAGTCATTTTATAGCATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGAATA
38869089 ACAGTCATTTTA
1 ACAGTCATTTTA
38869101 CCACGTGAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (27 bp):
ACAGTCATTTTATAACATAGGGGAATA
Found at i:38897017 original size:32 final size:32
Alignment explanation
Indices: 38896976--38897040 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
38896966 AGAGAGTGCG
*
38896976 AGCGTCGTGGGCACTTTAGAGTCAGAGCTCCT
1 AGCGTCGTGGGCACTTTAGAGGCAGAGCTCCT
38897008 AGCGTCGTGGGCACTTTAGAGGCAGAGCTCCT
1 AGCGTCGTGGGCACTTTAGAGGCAGAGCTCCT
38897040 A
1 A
38897041 TGGAGCATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (32 bp):
AGCGTCGTGGGCACTTTAGAGGCAGAGCTCCT
Found at i:38897684 original size:16 final size:17
Alignment explanation
Indices: 38897665--38897707 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
38897655 ATGTTTTATG
38897665 TTTTTTTTATTTG-TAC
1 TTTTTTTTATTTGTTAC
*
38897681 -TTTTTTTA-TTGTTAT
1 TTTTTTTTATTTGTTAC
38897696 TTTTTTTTATTT
1 TTTTTTTTATTT
38897708 TTCAGACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 8 0.35
17 2 0.09
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (17 bp):
TTTTTTTTATTTGTTAC
Found at i:38898975 original size:14 final size:14
Alignment explanation
Indices: 38898956--38898986 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
38898946 TTGAATGCTT
38898956 TGAGTGAACCTTAG
1 TGAGTGAACCTTAG
38898970 TGAGTGAACCTTAG
1 TGAGTGAACCTTAG
38898984 TGA
1 TGA
38898987 CTGCTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (14 bp):
TGAGTGAACCTTAG
Found at i:38904402 original size:43 final size:43
Alignment explanation
Indices: 38904330--38904749 Score: 586
Period size: 43 Copynumber: 9.8 Consensus size: 43
38904320 GCGTCGCAAA
* *
38904330 CTTTAGCGGCG-TTTCCACAAAAAATGCCGCTAAAG-CTCAAGAC
1 CTTTAGCGGCGCTTTCCAC-ACAAACGCCGCTAAAGAC-CAAGAC
38904373 CTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
*
38904416 CTTTAGCGGCGCTTTCCACACAAACGCTGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
38904459 CTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
38904502 CTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
*
38904545 CTTTAGCGGTGCTAATT-C-CACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCT--TTCCACACAAACGCCGCTAAAGACCAAGAC
** *
38904588 CTTTAGCTACGCTTCTCC-CACAAACGCTGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTT-TCCACACAAACGCCGCTAAAGACCAAGAC
*** *
38904631 CTTTAGCGGCGC-TTCTTTTACAAACGCCGCTAAAAACCAAGAC
1 CTTTAGCGGCGCTTTC-CACACAAACGCCGCTAAAGACCAAGAC
* *
38904674 CTTTAGCGGCGCTTCTCC-TACAAATGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTT-TCCACACAAACGCCGCTAAAGACCAAGAC
*
38904717 CGTTAGCGGCGCTTCTCC-CACAAACGCCGCTAA
1 CTTTAGCGGCGCTT-TCCACACAAACGCCGCTAA
38904750 TTTTGGCAAA
Statistics
Matches: 346, Mismatches: 21, Indels: 20
0.89 0.05 0.05
Matches are distributed among these distances:
41 3 0.01
42 2 0.01
43 327 0.95
44 10 0.03
45 4 0.01
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
Found at i:38907629 original size:16 final size:16
Alignment explanation
Indices: 38907610--38907748 Score: 71
Period size: 16 Copynumber: 9.0 Consensus size: 16
38907600 TATTAAGTAA
38907610 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
38907626 ATTATATAAGTTATGT
1 ATTATGTAAGTTATGT
*
38907642 AAGTTACGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
* * *
38907658 GAGCTATGTAAGTTGTAT
1 -A-TTATGTAAGTTATGT
*
38907676 TTTATGTAAGTTA--T
1 ATTATGTAAGTTATGT
* *
38907690 -TTA-GTATG-TAAG-
1 ATTATGTAAGTTATGT
* *
38907702 -CTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
*
38907717 ATTATGTAAGCTATGT
1 ATTATGTAAGTTATGT
*
38907733 ATTATGTTAGTTATGT
1 ATTATGTAAGTTATGT
38907749 CGGTTATATA
Statistics
Matches: 92, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
11 2 0.02
12 6 0.07
13 7 0.08
14 3 0.03
16 63 0.68
17 3 0.03
18 8 0.09
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.47
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:38907639 original size:25 final size:25
Alignment explanation
Indices: 38907598--38907689 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 25
38907588 TATATATTTC
*
38907598 TGTATTA-AGTAAATTATGTAAGTTA
1 TGTATTATA-TAAGTTATGTAAGTTA
38907623 TGTATTATATAAGTTATGTAAGTTA
1 TGTATTATATAAGTTATGTAAGTTA
* * * * *
38907648 CGTATTATGTGAGCTATGTAAGTTG
1 TGTATTATATAAGTTATGTAAGTTA
* * *
38907673 TATTTTATGTAAGTTAT
1 TGTATTATATAAGTTAT
38907690 TTAGTATGTA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 54 0.98
26 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (25 bp):
TGTATTATATAAGTTATGTAAGTTA
Found at i:38907644 original size:9 final size:9
Alignment explanation
Indices: 38907606--38907969 Score: 141
Period size: 9 Copynumber: 43.3 Consensus size: 9
38907596 TCTGTATTAA
*
38907606 GTAAATTAT
1 GTAAGTTAT
38907615 GTAAGTTAT
1 GTAAGTTAT
38907624 GT-A-TTAT
1 GTAAGTTAT
*
38907631 ATAAGTTAT
1 GTAAGTTAT
*
38907640 GTAAGTTAC
1 GTAAGTTAT
38907649 GT-A-TTAT
1 GTAAGTTAT
* *
38907656 GTGAGCTAT
1 GTAAGTTAT
38907665 GTAAG-T-T
1 GTAAGTTAT
**
38907672 GTATTTTAT
1 GTAAGTTAT
38907681 GTAAGTTAT
1 GTAAGTTAT
*
38907690 -TTAG-TAT
1 GTAAGTTAT
*
38907697 GTAAGCTAT
1 GTAAGTTAT
*
38907706 GTAAGTTGT
1 GTAAGTTAT
38907715 GT-A-TTAT
1 GTAAGTTAT
*
38907722 GTAAGCTAT
1 GTAAGTTAT
38907731 GT-A-TTAT
1 GTAAGTTAT
*
38907738 GTTAGTTAT
1 GTAAGTTAT
**
38907747 GTCGGTTAT
1 GTAAGTTAT
*
38907756 AT-A-TTAT
1 GTAAGTTAT
*
38907763 GTATGTTAT
1 GTAAGTTAT
*
38907772 GTAAGTTGT
1 GTAAGTTAT
*
38907781 -TCAGTTA-
1 GTAAGTTAT
*
38907788 -TAAGCTAT
1 GTAAGTTAT
38907796 GTAAGTTAT
1 GTAAGTTAT
*
38907805 GTGAGTTA-
1 GTAAGTTAT
38907813 -T-A--TAT
1 GTAAGTTAT
38907818 GTAAGTTAT
1 GTAAGTTAT
38907827 GTATAAG-T-T
1 G--TAAGTTAT
*
38907836 -TAATTTGTAT
1 GTAA-GT-TAT
*
38907846 -TAAGCTAT
1 GTAAGTTAT
*
38907854 GTAAGTTGT
1 GTAAGTTAT
*
38907863 G-AA-TAAT
1 GTAAGTTAT
38907870 GTAAGTTAT
1 GTAAGTTAT
*
38907879 GAAAGTTAT
1 GTAAGTTAT
*
38907888 GTATTAAGTTGT
1 G---TAAGTTAT
38907900 GT-A-TTAT
1 GTAAGTTAT
*
38907907 GTAAGTTGT
1 GTAAGTTAT
*
38907916 G-AA-TAAT
1 GTAAGTTAT
38907923 GTAAGTTAT
1 GTAAGTTAT
38907932 G-AACGTTAT
1 GTAA-GTTAT
38907941 GT-A-TTAT
1 GTAAGTTAT
38907948 GTTAAGTTAT
1 G-TAAGTTAT
*
38907958 GAAAGTTAT
1 GTAAGTTAT
38907967 GTA
1 GTA
38907970 TTAAGTTGTG
Statistics
Matches: 263, Mismatches: 50, Indels: 84
0.66 0.13 0.21
Matches are distributed among these distances:
4 2 0.01
6 5 0.02
7 55 0.21
8 37 0.14
9 143 0.54
10 10 0.04
11 4 0.02
12 7 0.03
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:38907681 original size:41 final size:41
Alignment explanation
Indices: 38907610--38907774 Score: 163
Period size: 41 Copynumber: 4.0 Consensus size: 41
38907600 TATTAAGTAA
* * *
38907610 ATTATGTAAGTTATGT-A-TTATATAAGTTATGTAAGTTACGT
1 ATTATGTAAGCTATGTAAGTTGTAT-A-TTATGTAAGTTATGT
* * *
38907651 ATTATGTGAGCTATGTAAGTTGTATTTTATGTAAGTTATTT
1 ATTATGTAAGCTATGTAAGTTGTATATTATGTAAGTTATGT
* * *
38907692 AGTATGTAAGCTATGTAAGTTGTGTATTATGTAAGCTATGT
1 ATTATGTAAGCTATGTAAGTTGTATATTATGTAAGTTATGT
* * ** * *
38907733 ATTATGTTAGTTATGTCGGTTATATATTATGTATGTTATGT
1 ATTATGTAAGCTATGTAAGTTGTATATTATGTAAGTTATGT
38907774 A
1 A
38907775 AGTTGTTCAG
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 95 0.94
42 1 0.01
43 5 0.05
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (41 bp):
ATTATGTAAGCTATGTAAGTTGTATATTATGTAAGTTATGT
Found at i:38907706 original size:25 final size:25
Alignment explanation
Indices: 38907678--38907733 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
38907668 AGTTGTATTT
*
38907678 TATGTAAGTTATTTAGTATGTAAGC
1 TATGTAAGTTATGTAGTATGTAAGC
* *
38907703 TATGTAAGTTGTGTATTATGTAAGC
1 TATGTAAGTTATGTAGTATGTAAGC
38907728 TATGTA
1 TATGTA
38907734 TTATGTTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (25 bp):
TATGTAAGTTATGTAGTATGTAAGC
Found at i:38907746 original size:25 final size:25
Alignment explanation
Indices: 38907686--38907776 Score: 75
Period size: 25 Copynumber: 3.7 Consensus size: 25
38907676 TTTATGTAAG
38907686 TTAT-TTAG-TATGTAAGCTATGTAA
1 TTATGTTAGTTATGTAAGCTATGT-A
*
38907710 GT-TGTGTA-TTATGTAAGCTATGTA
1 TTATGT-TAGTTATGTAAGCTATGTA
** * *
38907734 TTATGTTAGTTATGTCGGTTATATA
1 TTATGTTAGTTATGTAAGCTATGTA
38907759 TTATG-TATGTTATGTAAG
1 TTATGTTA-GTTATGTAAG
38907777 TTGTTCAGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
23 1 0.02
24 8 0.15
25 44 0.83
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.48
Consensus pattern (25 bp):
TTATGTTAGTTATGTAAGCTATGTA
Found at i:38907873 original size:16 final size:16
Alignment explanation
Indices: 38907852--38907934 Score: 76
Period size: 16 Copynumber: 4.9 Consensus size: 16
38907842 GTATTAAGCT
38907852 ATGTAAGTTGTGAATA
1 ATGTAAGTTGTGAATA
* *
38907868 ATGTAAGTTATGAAAGTT
1 ATGTAAGTTGTG-AA-TA
* *
38907886 ATGTATTAAGTTGTGTATT
1 ATG---TAAGTTGTGAATA
38907905 ATGTAAGTTGTGAATA
1 ATGTAAGTTGTGAATA
*
38907921 ATGTAAGTTATGAA
1 ATGTAAGTTGTGAA
38907935 CGTTATGTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
16 35 0.64
17 2 0.04
18 4 0.07
19 5 0.09
20 1 0.02
21 8 0.15
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (16 bp):
ATGTAAGTTGTGAATA
Found at i:38908099 original size:37 final size:36
Alignment explanation
Indices: 38908058--38908182 Score: 127
Period size: 37 Copynumber: 3.5 Consensus size: 36
38908048 TAGAAACTGA
38908058 TATGTAATTAGAAATTGTATCTTAATATTATATAAGT
1 TATGTAATTAGAAATT-TATCTTAATATTATATAAGT
*
38908095 TATGTAATGAG-AA---A--TTAATATTATATAAGT
1 TATGTAATTAGAAATTTATCTTAATATTATATAAGT
* *
38908125 TATGTAATTCGAAATTTTATCTTAATATTGTATAAGT
1 TATGTAATTAGAAA-TTTATCTTAATATTATATAAGT
* *
38908162 TATCTAAATATATAAATTTAT
1 TATGT-AAT-TAGAAATTTAT
38908183 GTGTACTTAG
Statistics
Matches: 72, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
30 25 0.35
31 2 0.03
32 1 0.01
35 1 0.01
36 2 0.03
37 29 0.40
38 8 0.11
39 4 0.06
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.46
Consensus pattern (36 bp):
TATGTAATTAGAAATTTATCTTAATATTATATAAGT
Found at i:38908234 original size:94 final size:94
Alignment explanation
Indices: 38908109--38908315 Score: 258
Period size: 94 Copynumber: 2.2 Consensus size: 94
38908099 TAATGAGAAA
* * * ** *
38908109 TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAATA-T
1 TTAATATTATATAAGTTATGTAATTCCAAATTTAATCTTAAAATAATATAACTTATCTAAATATT
* *
38908173 ATA-AATTTATGTGTACTTAGAAATTACAAT-
66 ATAGAAGTTA--TGTAATTAGAAATT-CAATC
* *
38908203 TTAACATTATATAAGTTATGTAATTCCAAATTTAATCTTAAAATAATATAACTTATCTTAATATT
1 TTAATATTATATAAGTTATGTAATTCCAAATTTAATCTTAAAATAATATAACTTATCTAAATATT
**
38908268 ATAGAAGTTATGTAATTAGAAATTTTATC
66 ATAGAAGTTATGTAATTAGAAATTCAATC
38908297 TTAATATTATATAAGTTAT
1 TTAATATTATATAAGTTAT
38908316 CTTAATATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 2 0.02
94 86 0.89
95 4 0.04
96 5 0.05
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (94 bp):
TTAATATTATATAAGTTATGTAATTCCAAATTTAATCTTAAAATAATATAACTTATCTAAATATT
ATAGAAGTTATGTAATTAGAAATTCAATC
Found at i:38908278 original size:20 final size:20
Alignment explanation
Indices: 38908237--38908404 Score: 127
Period size: 20 Copynumber: 8.7 Consensus size: 20
38908227 TCCAAATTTA
* * *
38908237 ATCTTAAAATAATATAACTT
1 ATCTTAATATTATATAAGTT
*
38908257 ATCTTAATATTATAGAAGTT
1 ATCTTAATATTATATAAGTT
* * *
38908277 AT-GT-A-ATTAGA-AATTTT
1 ATCTTAATATTATATAA-GTT
38908294 ATCTTAATATTATATAAGTT
1 ATCTTAATATTATATAAGTT
38908314 ATCTTAATATTTATATAAGTT
1 ATCTTAATA-TTATATAAGTT
* * *
38908335 AT-AT-A-ATTAGA-AATTTT
1 ATCTTAATATTATATAA-GTT
* * *
38908352 GTCTTAATACTATATAAGTA
1 ATCTTAATATTATATAAGTT
38908372 ATCTTAATATTATATAAGTT
1 ATCTTAATATTATATAAGTT
*
38908392 ATCTTAATTTTAT
1 ATCTTAATATTAT
38908405 GTTATTTCCA
Statistics
Matches: 114, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
16 4 0.04
17 16 0.14
18 4 0.04
19 4 0.04
20 69 0.61
21 17 0.15
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (20 bp):
ATCTTAATATTATATAAGTT
Found at i:38908351 original size:58 final size:57
Alignment explanation
Indices: 38908203--38908393 Score: 265
Period size: 57 Copynumber: 3.3 Consensus size: 57
38908193 AAATTACAAT
* ** * * * *
38908203 TTAACATTATATAAGTTATGTAATTCCAAATTTAATCTTAAAATAATATAACTTATC
1 TTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
*
38908260 TTAATATTATAGAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * * *
38908317 TTAATATTTATATAAGTTATATAATTAGAAATTTTGTCTTAATACTATATAAGTAATC
1 TTAATA-TTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
38908375 TTAATATTATATAAGTTAT
1 TTAATATTATATAAGTTAT
38908394 CTTAATTTTA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
57 68 0.57
58 52 0.43
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (57 bp):
TTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
Found at i:38910279 original size:18 final size:18
Alignment explanation
Indices: 38910238--38910286 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
38910228 ATATAGTTAC
38910238 TGAAAAAT-TTAAATACT
1 TGAAAAATATTAAATACT
38910255 T-AGAAAATATTAAA-ACAT
1 TGA-AAAATATTAAATAC-T
38910273 TGAAAAAGTATTAA
1 TGAAAAA-TATTAA
38910287 CGAATAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.04
17 8 0.30
18 11 0.41
19 7 0.26
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (18 bp):
TGAAAAATATTAAATACT
Found at i:38913879 original size:28 final size:28
Alignment explanation
Indices: 38913797--38913974 Score: 225
Period size: 28 Copynumber: 6.4 Consensus size: 28
38913787 GAGATTGGCG
* * * *
38913797 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
38913826 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38913853 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38913881 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38913909 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38913937 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
* *
38913964 CTGAGTCTGCG
1 CTAAGTGTGCG
38913975 GACTTATTAT
Statistics
Matches: 135, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
27 43 0.32
28 81 0.60
29 11 0.08
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:38916344 original size:228 final size:228
Alignment explanation
Indices: 38915951--38916368 Score: 504
Period size: 228 Copynumber: 1.8 Consensus size: 228
38915941 GTGAAGCCGA
* * * * *
38915951 AACGATTCGTTTTGGTCAAAATTTTTGCGGTGCTTAAGCAGAAGCGCCACTAAAAGCTAATATAT
1 AACGATGCGTTTTGGTCAAAATATTTGCGGCGATTAAGCAGAAGCGACACTAAAAGCTAATATAT
* * *
38916016 AGCGGTGTTTACGGGTACGCGCCACTAAAGGCACTATAGCTCAAGACGAAACGTTGCGTTTCGAT
66 AGCGGCGTTTACGGCTAAGCGCCACTAAAGGCACTATAGCTCAAGACGAAACGTTGCGTTTCGAT
* * ** * * *
38916081 TTAAAATTTTTCAGTGTTTTTTAGTTAAACGCCGCTATTTA-TGGGATATAGCGGCGTTTTTAGG
131 TTAAAATGTTCCAGCATTTTTCAGTTAAACGCCGCTA-ATAGCGGGATATAGCGGCGTTTTTAGG
38916145 TAAGCGCCACTAATGCCTTTATACGTCAAACCCG
195 TAAGCGCCACTAATGCCTTTATACGTCAAACCCG
* * * *
38916179 AACGATGCGTTTTGTTCAAAATATTTGCGGCGATTCAGGA-ATAGCGACACTAAAAGCTGATATA
1 AACGATGCGTTTTGGTCAAAATATTTGCGGCGATTAAGCAGA-AGCGACACTAAAAGCTAATATA
** * *
38916243 TAGCGGCGTTTTTGGCTAAGCGCCGCTAAAGGCTCTATAGCTCAAGACGAAAC-TCTGCGTTTCG
65 TAGCGGCGTTTACGGCTAAGCGCCACTAAAGGCACTATAGCTCAAGACGAAACGT-TGCGTTTCG
* * ** *
38916307 GTTTCAAAA-GTTCC-GACATTTTTCGGTTACGCGCCGCTAATAGCGGGCTATAGCGGCGTTTT
129 ATTT-AAAATGTTCCAG-CATTTTTCAGTTAAACGCCGCTAATAGCGGGATATAGCGGCGTTTT
38916369 CCACAAGCGC
Statistics
Matches: 157, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
227 5 0.03
228 148 0.94
229 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (228 bp):
AACGATGCGTTTTGGTCAAAATATTTGCGGCGATTAAGCAGAAGCGACACTAAAAGCTAATATAT
AGCGGCGTTTACGGCTAAGCGCCACTAAAGGCACTATAGCTCAAGACGAAACGTTGCGTTTCGAT
TTAAAATGTTCCAGCATTTTTCAGTTAAACGCCGCTAATAGCGGGATATAGCGGCGTTTTTAGGT
AAGCGCCACTAATGCCTTTATACGTCAAACCCG
Found at i:38918518 original size:38 final size:38
Alignment explanation
Indices: 38918451--38918549 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
38918441 CAAGTGTTTC
*
38918451 AAAATATTT--AATAAA-TTAGAAATATGATTAAAAAT
1 AAAATATTTACAATAAATTTAGAAAGATGATTAAAAAT
38918486 AAAATATTTACAATAAATTTAGAAACGA-GATTAAAAAT
1 AAAATATTTACAATAAATTTAGAAA-GATGATTAAAAAT
*
38918524 AAAATA-TCAGCAAATAAATTTAGAAA
1 AAAATATTTA-C-AATAAATTTAGAAA
38918550 TGATATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
35 9 0.16
37 8 0.14
38 24 0.43
39 15 0.27
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (38 bp):
AAAATATTTACAATAAATTTAGAAAGATGATTAAAAAT
Found at i:38921327 original size:15 final size:15
Alignment explanation
Indices: 38921307--38921336 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38921297 ATGTAGGAGG
*
38921307 GATAAATCATATCCT
1 GATAAATCAAATCCT
38921322 GATAAATCAAATCCT
1 GATAAATCAAATCCT
38921337 ACTACATGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (15 bp):
GATAAATCAAATCCT
Found at i:38934633 original size:31 final size:29
Alignment explanation
Indices: 38934598--38934673 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
38934588 TAATGGCTCG
*
38934598 GTGACTAAAATGTTACAATACAATAACATAA
1 GTGACTAAAATGTAAC-ATACAA-AACATAA
* * * *
38934629 GTGACTAAAACGTAACATTCCAAATATAA
1 GTGACTAAAATGTAACATACAAAACATAA
38934658 GTGACTAAAATGTAAC
1 GTGACTAAAATGTAAC
38934674 CTGAGGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 21 0.54
30 4 0.10
31 14 0.36
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (29 bp):
GTGACTAAAATGTAACATACAAAACATAA
Found at i:38937625 original size:14 final size:15
Alignment explanation
Indices: 38937602--38937634 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
38937592 ACTCTAGAAA
38937602 TTTT-AAAAAAT-AT
1 TTTTAAAAAAATCAT
38937615 TTTTAAAAAAATCAT
1 TTTTAAAAAAATCAT
38937630 TTTTA
1 TTTTA
38937635 GCCATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 7 0.39
15 7 0.39
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTAAAAAAATCAT
Found at i:38944743 original size:22 final size:22
Alignment explanation
Indices: 38944715--38944758 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
38944705 CAGGTGACAT
38944715 GATATCCACTCCTTTGTGTCGC
1 GATATCCACTCCTTTGTGTCGC
38944737 GATATCCACTCCTTTGTGTCGC
1 GATATCCACTCCTTTGTGTCGC
38944759 AACACCCACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (22 bp):
GATATCCACTCCTTTGTGTCGC
Found at i:38944767 original size:22 final size:22
Alignment explanation
Indices: 38944720--38944767 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
38944710 GACATGATAT
* * *
38944720 CCACTCCTTTGTGTCGCGATAT
1 CCACTCCTTTGTGTCGCAACAC
38944742 CCACTCCTTTGTGTCGCAACAC
1 CCACTCCTTTGTGTCGCAACAC
38944764 CCAC
1 CCAC
38944768 GACAATTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.40, G:0.15, T:0.29
Consensus pattern (22 bp):
CCACTCCTTTGTGTCGCAACAC
Found at i:38945987 original size:26 final size:26
Alignment explanation
Indices: 38945901--38946067 Score: 172
Period size: 26 Copynumber: 6.3 Consensus size: 26
38945891 TTATGGTTTT
* * *
38945901 CCACAAAGGCTTTCAATTCATTTTATG
1 CCACAAAGGCTTTC-TTTCATATTACG
* * *
38945928 CCACAAAGGCTACTCTTTCATATTGCA
1 CCACAAAGGCT-TTCTTTCATATTACG
* * *
38945955 CCTCAAAGGCATTCTTTCATGTTACG
1 CCACAAAGGCTTTCTTTCATATTACG
* *
38945981 CCACAAAGGCTTTGTTTCATATTACA
1 CCACAAAGGCTTTCTTTCATATTACG
*
38946007 CCACAAAGGCTTTCTTTCATACTACG
1 CCACAAAGGCTTTCTTTCATATTACG
* * *
38946033 CCACAAAGGCTTCCTTTCATACTACA
1 CCACAAAGGCTTTCTTTCATATTACG
*
38946059 CGACAAAGG
1 CCACAAAGG
38946068 TTTTTCCTTA
Statistics
Matches: 116, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 87 0.75
27 27 0.23
28 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (26 bp):
CCACAAAGGCTTTCTTTCATATTACG
Found at i:38946022 original size:52 final size:52
Alignment explanation
Indices: 38945901--38946067 Score: 199
Period size: 52 Copynumber: 3.2 Consensus size: 52
38945891 TTATGGTTTT
* * * * *
38945901 CCACAAAGGCTTTCAATTCATTTTATGCCACAAAGGCTACTCTTTCATATTGCA
1 CCACAAAGGCTTTC-TTTCATATTACGCCACAAAGGCT-TTCTTTCATATTACA
* * * *
38945955 CCTCAAAGGCATTCTTTCATGTTACGCCACAAAGGCTTTGTTTCATATTACA
1 CCACAAAGGCTTTCTTTCATATTACGCCACAAAGGCTTTCTTTCATATTACA
* * *
38946007 CCACAAAGGCTTTCTTTCATACTACGCCACAAAGGCTTCCTTTCATACTACA
1 CCACAAAGGCTTTCTTTCATATTACGCCACAAAGGCTTTCTTTCATATTACA
*
38946059 CGACAAAGG
1 CCACAAAGG
38946068 TTTTTCCTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 65 0.67
53 20 0.21
54 12 0.12
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (52 bp):
CCACAAAGGCTTTCTTTCATATTACGCCACAAAGGCTTTCTTTCATATTACA
Found at i:38950440 original size:21 final size:21
Alignment explanation
Indices: 38950405--38950459 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
38950395 CATGGTTTGC
* *
38950405 TCACATGGTCATGTGACCC-A
1 TCACACGGCCATGTGACCCAA
38950425 TCTACACGGCCATGTGACCCAA
1 TC-ACACGGCCATGTGACCCAA
*
38950447 TCACATGGCCATG
1 TCACACGGCCATG
38950460 GGGCCTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (21 bp):
TCACACGGCCATGTGACCCAA
Found at i:38953575 original size:57 final size:57
Alignment explanation
Indices: 38953493--38953626 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 57
38953483 ACAGAGTCTC
* * * * * * *
38953493 GCCACAAAAGC-ATCATTTAAGAGGTTTGCCACGAAGGCTTAGCC-TTCTAGAGTTTT
1 GCCACAAAGGCTATCATTTAACAGGTTCGCCACAAAGGCTT-GCCTTTATACAGTTCT
38953549 GCCACAAAGGCTATCATTTAACAGGTTCGCCACAAAGGCTTGCCTTTATACAGTTCT
1 GCCACAAAGGCTATCATTTAACAGGTTCGCCACAAAGGCTTGCCTTTATACAGTTCT
* * *
38953606 GGCACAAAGACTGTCATTTAA
1 GCCACAAAGGCTATCATTTAA
38953627 TAGTTGTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
56 13 0.20
57 53 0.80
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (57 bp):
GCCACAAAGGCTATCATTTAACAGGTTCGCCACAAAGGCTTGCCTTTATACAGTTCT
Done.